Clustering

Cluster Analysis

Potential Methods

1. cluster::kmeans()
   • base R function
2. cluster::clara()
   • base R function built for bigger data
3. biganalytics::bigkmeans()
   • revolutionAnalytics/Microsoft R function
4. sparklyr::ml_kmeans()
   • distributed/big data version using Apache Spark
5. dtwclust::tsclust()
   • kmeans based on time-series autocorrelation dissimilarity

Results using sparklyr

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# source("~/Testing/Joseph/trelliscope.R")
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# source("C:/Users/trenton.pulsipher/Documents/R/r_prjs/tsCogs/Testing/Joseph/trelliscope.R")
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library(tsCogs)
library(trelliscopejs)
library(magrittr)
library(sparklyr)

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rawData <- readRDS("C:/Users/trenton.pulsipher/Documents/R/r_prjs/tsCogs/R_Data/rawDailyProfilesAll-20180206.rds")
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#rawData <- readRDS("C:/Users/trenton.pulsipher/Documents/R/r_prjs/tsCogs/R_Data/rawDailyProfilesAll-20180206.rds")

# More generic location
rawData <- readRDS("~/R/R_prjs/tsCogs/R_Data/rawDailyProfilesAll-20180206.rds")
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rawData %<>%
  as.tibble() %>%
  rename(Date = ymd) %>%
  group_by(AccountNumber) %>%
  filter(!is.na(AccountNumber)) %>%
  arrange(Date) %>%
  mutate(Week = floor_date(Date, "week")) %>%
  group_by(AccountNumber, Week) %>%
  summarise(Count = sum(Count)) %>%
  rename(Date = Week) %>%
  mutate(meanCount = mean(Count, na.rm = T), 
         normCount = Count / meanCount) %>%
  select(AccountNumber, Date, normCount) %>%
  spread(key = Date, value = normCount)

sc <- spark_connect(master = "local") # setup spark connection
rawData_tbl <- copy_to(sc, rawData %>% 
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                         ungroup() ,#%>%
                         #select(-AccountNumber), 
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                         ungroup(),
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                       "rawData", overwrite = TRUE)
# tic()
# set.seed(1234)
# numClusters = c(10,25,50,100,150,200,300,500,1000)
# out = list()
# for(i in 1:length(numClusters)) {
#   out[[i]] = rawData_tbl %>%
#     ml_kmeans(~.-AccountNumber, centers = numClusters[[i]])
#   cat(numClusters[i], " ")
# }
# toc()
# 
# 
# qplot(x = numClusters, y = unlist(lapply(out, function(x) x$cost))) + 
#   geom_line() + 
#   labs(x = "Number of Clusters", y = "Total W/in Sums of Squares") +
#   theme_bw()

mlKmeans <- rawData_tbl %>%
  ml_kmeans(~.-AccountNumber, centers = 200)

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bob <- ml_predict(mlKmeans, rawData_tbl) %>%
  as_tibble()

bob %>%
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predict <- ml_predict(mlKmeans, rawData_tbl) %>%
  as_tibble()

predict %>%
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  select(-features) %>%
  # filter(prediction == 70) %>%
  gather("Date", "Count", `20140928`:`20180204`) %>%
  mutate(Date = ymd(Date)) %>%
  group_by(prediction) %>%
  # filter(Count > 0) %>%
  nest() %>%
  mutate(
    cogs = map_cog(data, ~ data_frame(
      numAccts = length(unique(.$AccountNumber)),
      total = sum(.$Count),
      mean = mean(.$Count),
      sd = sd(.$Count),
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      cv = (sd(.$Count) / mean(.$Count))
    )),
    panel = map_plot(data, ~ ggplot(., aes(x = Date, y = Count, group = AccountNumber)) +
                       geom_line(alpha = .1) +
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      cv = (sd(.$Count) / mean(.$Count))#,
      #total = sum(.$Count) / length(unique(.$AccountNumber))
    )),
    panel = map_plot(data, ~ ggplot(., aes(x = Date, y = Count, group = AccountNumber)) +
                       geom_line(alpha = .05) +
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                       theme_bw() +
                       labs(x = "", y = "normalized count")
                     )
  ) %>%
  trelliscope("Cluster Results", self_contained = T) 
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